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a() :
gmx::UniformIntDistribution< IntType >::param_type
,
gmx::UniformIntDistribution< IntType >
,
gmx::UniformRealDistribution< RealType >
,
gmx::UniformRealDistribution< RealType >::param_type
absoluteTolerance() :
gmx::test::FloatingPointTolerance
AbstractAnalysisArrayData() :
gmx::AbstractAnalysisArrayData
AbstractAnalysisData() :
gmx::AbstractAnalysisData
AbstractAverageHistogram() :
gmx::AbstractAverageHistogram
AbstractOption() :
gmx::AbstractOption
AbstractOptionSection() :
gmx::AbstractOptionSection
AbstractOptionSectionHandle() :
gmx::AbstractOptionSectionHandle
AbstractOptionStorage() :
gmx::AbstractOptionStorage
AbstractPlotModule() :
gmx::AbstractPlotModule
acceptOptions() :
gmx::OptionsModifyingIterator
,
gmx::OptionsIterator
acceptSections() :
gmx::OptionsIterator
,
gmx::OptionsModifyingIterator
access() :
gmx::accessor_basic< ElementType >
accessor() :
gmx::basic_mdspan< ElementType, Extents, LayoutPolicy, AccessorPolicy >
accumulate() :
ForeignLambdaTerms
add() :
gmx::LocalAtomSetManager
,
gmx::GaussTransform3D
,
gmx::MDModules
,
gmx::SimulatorBuilder
,
gmx::OptionManagerContainer
addAdapter() :
gmx::OutputAdapterContainer
addArray() :
gmx::KeyValueTreeObjectBuilder
addBehavior() :
gmx::OptionsBehaviorCollection
addBondAtomType() :
PreprocessingBondAtomType
addBondedTaskAssignment() :
gmx::MdrunnerBuilder
addCastConversion() :
gmx::OptionValueConverterSimple< OutType >
addCogs() :
gmx::UpdateGroupsCog
addColumn() :
gmx::TextTableFormatter
addColumnHelpTextBlock() :
gmx::TextTableFormatter
addColumnLine() :
gmx::TextTableFormatter
addColumnModule() :
gmx::AbstractAnalysisData
addConverter() :
gmx::OptionValueConverterSimple< OutType >
addCurrentExceptionAsNested() :
gmx::ExceptionInitializer
addDefaultFileNameOption() :
gmx::FileNameOptionManager
addDomainDecomposition() :
gmx::MdrunnerBuilder
addElectrostatics() :
gmx::MdrunnerBuilder
addError() :
gmx::EnergyCalculationFrequencyErrors
addExistingFile() :
gmx::test::TestFileInputRedirector
addFilenames() :
gmx::MdrunnerBuilder
addForceProvider() :
gmx::ForceProviders
addFrame() :
gmx::test::AnalysisDataTestInput
addFrameWithValueAndError() :
gmx::test::AnalysisDataTestInput
addFrameWithValues() :
gmx::test::AnalysisDataTestInput
addGroup() :
gmx::AbstractOptionSectionHandle
,
gmx::IOptionsContainer
,
gmx::Options
addHardwareOptions() :
gmx::MdrunnerBuilder
addHelpTopic() :
gmx::CommandLineModuleManager
addInput() :
gmx::MdrunnerBuilder
addLink() :
gmx::HelpLinks
addLogFile() :
gmx::MdrunnerBuilder
addManager() :
gmx::Options
addModule() :
gmx::CommandLineModuleGroup
,
gmx::AbstractAnalysisData
,
gmx::AnalysisDataModuleManager
,
gmx::CommandLineModuleManager
addModuleCMain() :
gmx::CommandLineModuleManager
addModuleCMainWithSettings() :
gmx::CommandLineModuleManager
addModuleGroup() :
gmx::CommandLineModuleManager
addModuleWithDescription() :
gmx::CommandLineModuleGroup
addNeighborList() :
gmx::MdrunnerBuilder
addNested() :
gmx::ExceptionInitializer
addNonBonded() :
gmx::MdrunnerBuilder
addObject() :
gmx::KeyValueTreeObjectArrayBuilder
,
gmx::KeyValueTreeObjectBuilder
addObjectArray() :
gmx::KeyValueTreeObjectBuilder
addOption() :
gmx::IOptionsContainer
,
gmx::test::CommandLine
addOptionForSelection() :
gmx::test::ModuleSelection
addOptionImpl() :
gmx::IOptionsContainer
addOptionsBehavior() :
gmx::ICommandLineOptionsModuleSettings
addOutputEnvironment() :
gmx::MdrunnerBuilder
addPointSet() :
gmx::test::AnalysisDataTestInputFrame
addPointSetWithValueAndError() :
gmx::test::AnalysisDataTestInputFrame
addPointSetWithValues() :
gmx::test::AnalysisDataTestInputFrame
addPotential() :
gmx::Mdrunner
addRawValue() :
gmx::KeyValueTreeObjectBuilder
addReferenceCheckerModule() :
gmx::test::AnalysisDataTestFixture
addRegexToSkip() :
gmx::test::FilteringExactTextMatch
addReplicaExchange() :
gmx::MdrunnerBuilder
addRule() :
gmx::IKeyValueTreeTransformRules
addSection() :
gmx::IOptionsContainerWithSections
addSectionImpl() :
gmx::IOptionsContainerWithSections
addSimulationMethod() :
gmx::MdrunnerBuilder
addStaticCheckerModule() :
gmx::test::AnalysisDataTestFixture
addStaticColumnCheckerModule() :
gmx::test::AnalysisDataTestFixture
addStaticParallelCheckerModule() :
gmx::test::AnalysisDataTestFixture
addStaticStorageCheckerModule() :
gmx::test::AnalysisDataTestFixture
addStopHandlerBuilder() :
gmx::MdrunnerBuilder
addString() :
StringTableBuilder
addSubTopic() :
gmx::AbstractCompositeHelpTopic
addTargetFile() :
gmx::LoggerBuilder
addTargetStream() :
gmx::LoggerBuilder
addTimeUnitOption() :
gmx::TimeUnitBehavior
addTopology() :
gmx::test::ModuleTest
addToSpec() :
gmx::RestraintManager
addType() :
PreprocessingAtomTypes
addUniformArray() :
gmx::KeyValueTreeObjectBuilder
addUpdateTaskAssignment() :
gmx::MdrunnerBuilder
addValue() :
gmx::test::AnalysisDataTestInputPointSet
,
gmx::OptionStorageTemplate< T >
,
gmx::KeyValueTreeUniformArrayBuilder< T >
,
gmx::KeyValueTreeObjectBuilder
addValueWithError() :
gmx::test::AnalysisDataTestInputPointSet
addVirialContribution() :
gmx::ForceWithVirial
adjustInputrecBasedOnModules() :
gmx::MDModules
AffineTransformation() :
gmx::AffineTransformation
AfterFrom() :
gmx::KeyValueTreeTransformRuleBuilder::AfterFrom< FromType >
ai() :
BondedInteraction
,
MoleculePatch
,
InteractionOfType
aj() :
BondedInteraction
,
MoleculePatch
ak() :
BondedInteraction
,
MoleculePatch
al() :
BondedInteraction
,
MoleculePatch
alignment() :
gmx::HostAllocationPolicy
,
gmx::AlignedAllocationPolicy
,
gmx::PageAlignedAllocationPolicy
allBlocksHaveSizeOne() :
gmx::RangePartitioning
allocate() :
gmx::Allocator< T, AllocationPolicy >
allocateValues() :
gmx::AbstractAnalysisArrayData
Allocator() :
gmx::Allocator< T, AllocationPolicy >
allowedValues() :
gmx::StringOptionInfo
,
gmx::EnumOptionInfo
allowEmpty() :
gmx::SelectionOption
allowMissing() :
gmx::FileNameOption
,
gmx::FileNameOptionInfo
allowMultiple() :
gmx::OptionTemplate< T, U >
allowPositionalArguments() :
gmx::CommandLineParser
allPresent() :
gmx::AnalysisDataPointSetRef
,
gmx::AnalysisDataFrameRef
allSizes() :
gmx::UnionFinder
,
gmx::MappedUnionFinder
alpha() :
gmx::GammaDistribution< RealType >::param_type
,
gmx::GammaDistribution< RealType >
am() :
BondedInteraction
AnalysisArrayData() :
gmx::AnalysisArrayData
AnalysisData() :
gmx::AnalysisData
AnalysisDataBinAverageModule() :
gmx::AnalysisDataBinAverageModule
AnalysisDataFrameHeader() :
gmx::AnalysisDataFrameHeader
AnalysisDataFrameRef() :
gmx::AnalysisDataFrameRef
AnalysisDataHandle() :
gmx::AnalysisDataHandle
AnalysisDataParallelOptions() :
gmx::AnalysisDataParallelOptions
AnalysisDataPlotModule() :
gmx::AnalysisDataPlotModule
AnalysisDataPlotSettings() :
gmx::AnalysisDataPlotSettings
AnalysisDataPointSetRef() :
gmx::AnalysisDataPointSetRef
AnalysisDataSimpleHistogramModule() :
gmx::AnalysisDataSimpleHistogramModule
AnalysisDataStorage() :
gmx::AnalysisDataStorage
AnalysisDataTestInput() :
gmx::test::AnalysisDataTestInput
AnalysisDataValue() :
gmx::AnalysisDataValue
AnalysisDataVectorPlotModule() :
gmx::AnalysisDataVectorPlotModule
AnalysisDataWeightedHistogramModule() :
gmx::AnalysisDataWeightedHistogramModule
AnalysisHistogramSettings() :
gmx::AnalysisHistogramSettings
AnalysisHistogramSettingsInitializer() :
gmx::AnalysisHistogramSettingsInitializer
AnalysisNeighborhood() :
gmx::AnalysisNeighborhood
AnalysisNeighborhoodPair() :
gmx::AnalysisNeighborhoodPair
AnalysisNeighborhoodPairSearch() :
gmx::AnalysisNeighborhoodPairSearch
AnalysisNeighborhoodPositions() :
gmx::AnalysisNeighborhoodPositions
AnalysisNeighborhoodSearch() :
gmx::AnalysisNeighborhoodSearch
analyzeFrame() :
gmx::TrajectoryAnalysisModule
Any() :
gmx::Any
APIError() :
gmx::APIError
append() :
gmx::test::CommandLine
,
gmx::KeyValueTreePath
,
gmx::test::CommandLine
,
gmx::MessageStringCollector
appendBlock() :
gmx::RangePartitioning
appendLegend() :
gmx::AbstractPlotModule
appendListOfLists() :
gmx::ListOfLists< typename >
appendText() :
gmx::LogEntryWriter
appendTextFormatted() :
gmx::LogEntryWriter
appendValue() :
gmx::OptionsAssigner
,
gmx::AbstractOptionStorage
,
gmx::OptionsAssigner
apply() :
gmx::Constraints
applyBiasForcesAndUpdateBias() :
gmx::Awh
applyModule() :
gmx::AnalysisDataModuleManager
,
gmx::AbstractAnalysisData
arg() :
gmx::test::CommandLine
argc() :
gmx::test::CommandLine
argv() :
gmx::test::CommandLine
ArrayRef() :
gmx::ArrayRef< typename >
arrayRefFromArray() :
gmx::ArrayRef< typename >
ArrayRefWithPadding() :
gmx::ArrayRefWithPadding< typename >
arrayRefWithPadding() :
gmx::PaddedVector< T, Allocator >
ArrayRefWithPadding() :
gmx::ArrayRefWithPadding< typename >
as_vec() :
gmx::BasicVector< ValueType >
asAbsolute() :
gmx::test::FloatingPointDifference
asConstView() :
gmx::MultiDimArray< TContainer, Extents, LayoutPolicy >
asParagraph() :
gmx::LogEntryWriter
assignOptionsToModules() :
gmx::MDModules
asUlps() :
gmx::test::FloatingPointDifference
asView() :
gmx::MultiDimArray< TContainer, Extents, LayoutPolicy >
at() :
gmx::ListOfLists< typename >
,
gmx::FixedCapacityVector< T, capacity >
,
StringTable
,
gmx_ga2la_t
,
gmx::ArrayRef< typename >
atom() :
AtomProxy
atom2constraints_moltype() :
gmx::Constraints
atom2settle_moltype() :
gmx::Constraints
atomChargeFromAtomType() :
PreprocessingAtomTypes
atomCount() :
gmx::Selection
,
gmx::SelectionPosition
atomdata_add_nbat_f_to_f() :
nonbonded_verlet_t
atomdata_add_nbat_f_to_f_gpu() :
nonbonded_verlet_t
atomdata_init_copy_x_to_nbat_x_gpu() :
nonbonded_verlet_t
atomIndices() :
gmx::Selection
,
gmx::SelectionPosition
AtomIterator() :
AtomIterator
atomMassFromAtomType() :
PreprocessingAtomTypes
atomName() :
AtomProxy
atomNameFromAtomType() :
PreprocessingAtomTypes
atomNameFromBondAtomType() :
PreprocessingBondAtomType
atomNonBondedParamFromAtomType() :
PreprocessingAtomTypes
atomNumberFromAtomType() :
PreprocessingAtomTypes
atomNumberFromElement() :
AtomProperties
atomNumberInMol() :
AtomProxy
atomParticleTypeFromAtomType() :
PreprocessingAtomTypes
AtomProperties() :
AtomProperties
AtomProxy() :
AtomProxy
AtomRange() :
AtomRange
atoms() :
InteractionOfType
,
gmx::TopologyInformation
,
InteractionOfType
atomTypeFromName() :
PreprocessingAtomTypes
average() :
gmx::AnalysisDataAverageModule
averageMCycles() :
nbnxn_cycle_t
averager() :
gmx::AnalysisDataSimpleHistogramModule
,
gmx::AnalysisDataWeightedHistogramModule
Awh() :
gmx::Awh
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